限制性两阶段多位点全基因组关联分析方法的特点与计算程序

贺建波,刘方东,邢光南,王吴彬,赵团结,管荣展,盖钧镒

Characterization and Analytical Programs of the Restricted Two-stage Multi- locus Genome-wide Association Analysis

Jian-Bo HE,Fang-Dong LIU,Guang-Nan XING,Wu-Bin WANG,Tuan-Jie ZHAO,Rong-Zhan GUAN,Jun-Yi GAI

附表1 大豆株高显著关联的SNPLDB标记位点

Supplementary table 1 SNPLDBs significantly associated with soybean plant height

SNPLDB 染色体 Chromosome 位置 Position Model a QTL QTL×Env. b -lg P -lg P R2 (%) -lg P R2 (%) LDB_19_44964630 19 44964630-45029584 58.26 206.01 7.361 52.86 1.693 LDB_6_44183574 6 44183574-44281248 46.46 199.50 7.359 11.64 0.495 LDB_16_8004288 16 8004288-8203845 42.01 171.86 6.140 6.15 0.280 LDB_13_11539212 13 11539212-11625990 28.64 120.36 4.091 0.66 0.053 LDB_17_36474880 17 36474880-36494652 22.81 96.33 3.229 0.80 0.059 LDB_4_37782684 4 37782684-37923093 22.06 83.36 2.809 3.39 0.170 LDB_8_7075139 8 7075139-7077091 26.19 81.67 2.616 16.09 0.505 LDB_3_26698545 3 26698545-26898267 17.24 68.85 2.423 4.56 0.261 LDB_15_16773982 15 16773982-16774010 22.09 72.65 2.273 5.22 0.154 LDB_16_28838874 16 28838874-28868118 16.44 56.11 1.887 1.01 0.077 LDB_4_11093449 4 11093449-11192120 13.61 51.18 1.800 3.13 0.195 LDB_2_5863888 2 5863888-5979031 14.88 47.63 1.493 1.06 0.042 LDB_16_7494681 16 7494681 16.21 48.32 1.440 1.04 0.018 LDB_1_50277902 1 50277902 17.34 47.47 1.413 8.98 0.239 LDB_14_2467475 14 2467475 15.57 45.66 1.356 0.88 0.014 LDB_4_29936477 4 29936477-29950803 14.74 38.98 1.217 5.63 0.186 LDB_3_22147965 3 22147965-22342699 11.98 32.08 1.209 11.34 0.516 LDB_7_20253563 7 20253563-20451607 13.83 36.68 1.174 2.68 0.108 LDB_14_46095634 14 46095634-46106570 12.67 35.50 1.076 0.28 0.008 LDB_3_8197776 3 8197776-8202466 11.51 32.01 1.026 1.05 0.052 LDB_6_22108685 6 22108685-22191360 10.97 28.35 1.004 5.03 0.241 LDB_6_1271502 6 1271502-1275159 12.04 32.96 0.997 0.61 0.018 LDB_12_34374105 12 34374105 12.35 32.82 0.956 0.40 0.005 LDB_5_27543725 5 27543725-27547377 11.25 27.31 0.851 1.50 0.056 LDB_5_4082209 5 4082209-4121721 10.60 26.74 0.834 2.20 0.079 LDB_4_16641482 4 16641482-16839772 8.72 22.21 0.786 2.84 0.150 LDB_19_39240844 19 39240844-39276967 11.01 23.49 0.759 5.16 0.188 LDB_5_15648588 5 15648588 10.85 25.48 0.731 0.14 0.001 LDB_4_12429588 4 12429588-12605113 9.93 20.00 0.715 6.46 0.276 LDB_9_45791340 9 45791340 10.33 22.42 0.638 0.56 0.008 LDB_3_36428638 3 36428638-36469336 8.56 19.15 0.624 1.44 0.066 LDB_16_2807415 16 2807415-2827492 9.48 17.29 0.588 6.02 0.231 SNPLDB 染色体 Chromosome 位置 Position Model a QTL QTL×Env. b -lg P -lg P R2 (%) -lg P R2 (%) LDB_11_35694247 11 35694247-35698584 9.13 18.50 0.553 0.30 0.009 LDB_7_35303124 7 35303124-35327231 7.34 15.83 0.542 1.43 0.076 LDB_15_12007768 15 12007768-12011501 7.68 16.51 0.492 0.18 0.005 LDB_7_32985427 7 32985427-33184712 6.68 13.54 0.489 0.74 0.057 LDB_2_3911388 2 3911388-3928107 7.14 14.07 0.466 1.34 0.062 LDB_9_20673268 9 20673268-20692609 6.87 13.82 0.436 0.33 0.016 LDB_16_1151749 16 1151749 9.34 15.53 0.432 4.63 0.115 LDB_19_44669655 19 44669655-44754287 8.40 13.62 0.430 7.17 0.233 LDB_5_907001 5 907001-907042 7.84 15.21 0.423 0.13 0.001 LDB_9_8062600 9 8062600-8116659 6.60 11.79 0.374 1.12 0.044 LDB_8_19152075 8 19152075-19152100 7.48 13.34 0.367 0.92 0.015 LDB_10_5777915 10 5777915-5798626 7.46 10.73 0.362 5.67 0.204 LDB_19_44550587 19 44550587-44558289 7.30 11.07 0.352 3.42 0.117 LDB_20_34089188 20 34089188 7.57 12.42 0.340 1.11 0.020 LDB_5_2803587 5 2803587 6.90 12.30 0.336 0.35 0.004 LDB_8_16373446 8 16373446-16420876 4.96 10.50 0.334 0.32 0.016 LDB_18_57452705 18 57452705-57457239 6.26 10.95 0.325 0.33 0.010 LDB_7_25096830 7 25096830 6.89 11.75 0.320 0.36 0.004 LDB_9_38183930 9 38183930-38268800 5.66 7.74 0.319 4.07 0.194 LDB_12_9936416 12 9936416-9994538 4.45 8.40 0.307 0.79 0.050 LDB_3_33432777 3 33432777-33462071 6.40 9.52 0.305 1.19 0.046 LDB_5_1382138 5 1382138 6.66 10.46 0.283 0.70 0.010 LDB_6_33023321 6 33023321 6.03 10.09 0.272 0.39 0.004 LDB_11_35162270 11 35162270 7.31 10.07 0.271 5.10 0.128 LDB_18_27478142 18 27478142 6.16 10.06 0.271 0.46 0.006 LDB_17_33708118 17 33708118-33815088 7.03 7.77 0.251 6.96 0.226 LDB_5_38350041 5 38350041-38432356 6.76 7.19 0.233 5.51 0.182 LDB_11_6370581 11 6370581-6486015 5.64 6.03 0.231 3.87 0.161 LDB_16_31959033 16 31959033-31999963 4.27 7.11 0.231 0.46 0.021 LDB_18_44942878 18 44942878-45064511 3.28 5.38 0.225 0.48 0.044 LDB_2_12669763 2 12669763-12684207 4.48 5.69 0.204 1.20 0.057 LDB_6_41523578 6 41523578 5.41 7.71 0.203 0.81 0.013 LDB_17_15782164 17 15782164-15845977 3.22 3.92 0.189 0.78 0.066 LDB_4_42809656 4 42809656-42809670 5.27 5.79 0.171 2.76 0.081 LDB_9_25244209 9 25244209 4.20 6.56 0.170 0.20 0.002 LDB_3_43245339 3 43245339 4.91 6.56 0.170 0.25 0.002 LDB_15_9202681 15 9202681 5.40 6.24 0.160 3.37 0.079 LDB_20_3498125 20 3498125-3691528 4.33 3.82 0.159 2.93 0.129 LDB_17_11367127 17 11367127-11382009 3.93 4.76 0.159 1.85 0.068 LDB_17_32520275 17 32520275-32552871 3.03 2.75 0.147 1.72 0.107 LDB_16_32918946 16 32918946 4.25 5.59 0.142 1.19 0.022 LDB_12_3456148 12 3456148 4.19 5.44 0.137 1.63 0.033 LDB_8_6056566 8 6056566 5.03 5.37 0.136 1.85 0.038 LDB_4_9550687 4 9550687-9550998 5.03 4.57 0.135 3.77 0.111 SNPLDB 染色体 Chromosome 位置 Position Model a QTL QTL×Env. b -lg P -lg P R2 (%) -lg P R2 (%) LDB_5_2285265 5 2285265-2285296 3.31 4.50 0.133 1.00 0.030 LDB_15_27523398 15 27523398-27723343 3.84 3.02 0.132 3.47 0.147 LDB_13_4599736 13 4599736 3.30 4.78 0.119 0.10 0.000 LDB_9_10672160 9 10672160-10831207 5.87 4.01 0.118 6.77 0.200 LDB_1_50652928 1 50652928-50669137 3.70 2.97 0.117 2.84 0.113 LDB_18_52669179 18 52669179 3.92 4.71 0.117 1.55 0.031 LDB_6_18845190 6 18845190 3.30 4.49 0.111 1.13 0.020 LDB_13_17681170 13 17681170 3.51 4.26 0.104 0.25 0.002 LDB_4_15008106 4 15008106-15030261 2.72 2.85 0.099 1.58 0.059 LDB_20_39556580 20 39556580 2.34 3.88 0.094 0.61 0.009 LDB_16_20099141 16 20099141 2.27 3.87 0.093 0.18 0.001 LDB_14_20541667 14 20541667 3.05 3.80 0.091 0.56 0.008 LDB_15_3242880 15 3242880 8.41 3.74 0.090 13.78 0.380 LDB_1_52750312 1 52750312 2.93 3.72 0.089 0.25 0.002 LDB_16_21247996 16 21247996 3.85 3.59 0.085 1.90 0.040 LDB_3_28458666 3 28458666 2.67 3.26 0.076 0.89 0.015 LDB_18_3933946 18 3933946 3.53 3.14 0.073 1.65 0.033 LDB_7_15901391 7 15901391-15903281 4.33 2.93 0.067 4.15 0.101 LDB_19_2090261 19 2090261-2090611 4.43 2.92 0.067 4.40 0.108 LDB_7_27922333 7 27922333-28121779 3.45 1.47 0.067 3.33 0.129 LDB_5_41679020 5 41679020 4.15 2.90 0.067 3.78 0.091 LDB_18_57497434 18 57497434-57500329 3.29 2.79 0.064 1.07 0.019 LDB_4_571693 4 571693 2.40 2.63 0.059 1.66 0.034 LDB_6_46436793 6 46436793-46436833 2.30 2.56 0.057 1.05 0.018 LDB_20_32314703 20 32314703 3.45 2.40 0.053 2.98 0.069 LDB_8_42752500 8 42752500 4.23 2.40 0.053 3.74 0.090 LDB_4_43757706 4 43757706 2.86 2.40 0.053 2.38 0.052 LDB_11_31994374 11 31994374-31994436 2.28 2.31 0.051 0.76 0.012 LDB_4_1643625 4 1643625-1744093 2.39 1.65 0.049 3.06 0.090 LDB_16_8204099 16 8204099 2.68 2.08 0.044 1.63 0.033 LDB_13_33478164 13 33478164 2.85 1.79 0.037 3.21 0.075 LDB_14_48799491 14 48799491-48799496 4.12 1.20 0.035 4.55 0.134 LDB_7_16630442 7 16630442 3.58 1.55 0.031 3.76 0.090 LDB_3_5207322 3 5207322 4.23 1.45 0.028 4.94 0.123 LDB_7_23869970 7 23869970 3.28 1.26 0.024 3.41 0.081 LDB_1_3351751 1 3351751 3.42 0.89 0.015 3.41 0.081 LDB_7_30278846 7 30278846 4.23 0.60 0.008 6.12 0.157 LDB_1_24895878 1 24895878 2.40 0.36 0.004 3.14 0.073 Total 114 104 c 78.103 51 d 10.312